Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008372.1 Hibiscus syriacus cultivar Beakdansim tig00111128_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1214897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:848603 original size:33 final size:33
Alignment explanation
Indices: 848564--848634 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
848554 TTCACTTAGA
848564 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
*
848597 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
848630 TTTCA
1 TTTCA
848635 AGTTAGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTGCGATTCTCTCGTTGCGAT
Found at i:848612 original size:19 final size:18
Alignment explanation
Indices: 848562--848612 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 18
848552 ATTTCACTTA
848562 GATTTCATTTCGCGTTGC
1 GATTTCATTTCGCGTTGC
*
848580 GA-TTC---TCTCGTTGC
1 GATTTCATTTCGCGTTGC
848594 GATTTTCATTTCGCGTTGC
1 GA-TTTCATTTCGCGTTGC
848613 TATTCTCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 10 0.38
16 3 0.12
17 3 0.12
18 2 0.08
19 8 0.31
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.45
Consensus pattern (18 bp):
GATTTCATTTCGCGTTGC
Found at i:848740 original size:21 final size:21
Alignment explanation
Indices: 848714--848790 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
848704 TGCAGAAGAG
848714 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* *
848735 TCGCAACGCGA-AAATGACTATA
1 TCGCAACGAGAGAAATGA--AAA
848757 T-GCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
848777 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
848791 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:848794 original size:14 final size:14
Alignment explanation
Indices: 848775--848831 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
848765 GAGAAATGAA
848775 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
848789 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
848808 AATCGCAACGAGAG
1 AATCGCAACGAGAG
848822 AATCGCAACG
1 AATCGCAACG
848832 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:848805 original size:33 final size:33
Alignment explanation
Indices: 848767--848847 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
848757 TGCAACGAGA
848767 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
848800 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
848833 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
848848 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:848884 original size:14 final size:14
Alignment explanation
Indices: 848865--848921 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
848855 TTTCATTTCG
848865 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
848879 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
848898 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
848912 CGTTGCGATT
1 CGTTGCGATT
848922 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:848890 original size:33 final size:33
Alignment explanation
Indices: 848848--848970 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
848838 CAAAATCGCA
848848 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
848881 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
848914 TTGCGATTTTCATTTCTCTCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTTGC----G--ATTCTCTCG
848955 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
848971 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 8 0.10
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:848932 original size:21 final size:21
Alignment explanation
Indices: 848906--848970 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
848896 CGCGTTGCGA
848906 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
848927 TTCTCTCGTTGCGATAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
848947 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
848968 TTC
1 TTC
848971 AACCAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:850983 original size:14 final size:14
Alignment explanation
Indices: 850966--850992 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
850956 AACGCGAAAC
850966 CAAAATCGCAACGA
1 CAAAATCGCAACGA
850980 CAAAATCGCAACG
1 CAAAATCGCAACG
850993 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:851014 original size:19 final size:19
Alignment explanation
Indices: 850894--851008 Score: 150
Period size: 19 Copynumber: 6.3 Consensus size: 19
850884 TAGTTTACTT
* *
850894 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
850914 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
850933 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
850952 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
850971 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
850985 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
851004 TCGCA
1 TCGCA
851009 TTGCGATTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 54 0.64
20 13 0.15
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:851026 original size:19 final size:19
Alignment explanation
Indices: 851004--851176 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
850994 GAAACCAAAA
*
851004 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
851023 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
851037 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
851056 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
851072 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
851089 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
851108 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
851127 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
851146 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
851166 TCGTGTTGCGA
1 TCGCGTTGCGA
851177 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:851045 original size:14 final size:14
Alignment explanation
Indices: 851026--851082 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
851016 TTTCATTTCG
851026 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
851040 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
851057 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
851073 CGTTGCGATT
1 CGTTGCGATT
851083 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:851134 original size:38 final size:38
Alignment explanation
Indices: 851004--851176 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
850994 GAAACCAAAA
*
851004 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
851039 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
851072 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
851108 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
851146 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
851177 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:853101 original size:14 final size:14
Alignment explanation
Indices: 853082--853117 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
853072 ATTGTTTAAT
853082 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
853096 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
853110 TGATTTGT
1 TGATTTGT
853118 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:853241 original size:20 final size:19
Alignment explanation
Indices: 853224--853322 Score: 118
Period size: 19 Copynumber: 5.4 Consensus size: 19
853214 AAAAATGACT
853224 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
*
853244 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
853263 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
853277 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
853296 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
853316 ATCGCAA
1 ATCGCAA
853323 CGAGAGAATC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 25 0.37
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:853354 original size:53 final size:53
Alignment explanation
Indices: 853224--853341 Score: 202
Period size: 53 Copynumber: 2.2 Consensus size: 53
853214 AAAAATGACT
*
853224 ATCGCAATGCGGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
853277 ATCGTAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
853330 ATCGCAATGCGA
1 ATCGCAATGCGA
853342 TTTTCATTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
52 18 0.30
53 43 0.70
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:853400 original size:53 final size:52
Alignment explanation
Indices: 853337--853554 Score: 302
Period size: 53 Copynumber: 4.1 Consensus size: 52
853327 AGAATCGCAA
853337 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
853390 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTACGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
853443 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
853501 TGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
853548 TGCGATT
1 TGCGATT
853555 GTAATTTCCG
Statistics
Matches: 154, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 9 0.06
53 109 0.71
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.08
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:853423 original size:72 final size:71
Alignment explanation
Indices: 853331--853540 Score: 255
Period size: 72 Copynumber: 2.9 Consensus size: 71
853321 AACGAGAGAA
* * *
853331 TCGCAATGCGATTTTCATTT-CGCATTGCGATTTTCATTTCCGCA-TTGCGATTCTCTCGTTGCG
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCG-ATTTGC-ATT-TCGCATTGCG
853394 ATTTTCATT
63 ATTTTCATT
* * * *
853403 TCGCATTGCGATTTTCATTTCCGCATTACGATTCTCTC-GTTGCGATTTTCATTTCGCATTGCGA
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTTCCGATTTGCATTTCGCATTGCGA
853467 TTTTCATT
64 TTTTCATT
** *
853475 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-TTCCGATTTGCATTTCGCATTGCGAT
853540 T
65 T
853541 CTCTCGTTGC
Statistics
Matches: 122, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
70 2 0.02
71 1 0.01
72 94 0.77
73 15 0.12
74 8 0.07
75 2 0.02
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCGATTTGCATTTCGCATTGCGATT
TTCATT
Found at i:855852 original size:12 final size:12
Alignment explanation
Indices: 855835--855859 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
855825 TCTTCGGGGA
855835 CTTTTTCTTCTT
1 CTTTTTCTTCTT
855847 CTTTTTCTTCTT
1 CTTTTTCTTCTT
855859 C
1 C
855860 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:856800 original size:20 final size:20
Alignment explanation
Indices: 856772--856980 Score: 213
Period size: 20 Copynumber: 10.4 Consensus size: 20
856762 AAATTTCAGT
* * *
856772 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
856792 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
856812 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
856832 GTTACGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
856852 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
856872 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
856892 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
856912 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
856932 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
856952 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
856972 GTTGCGATT
1 GTTGCGATT
856981 CTGGAAAATC
Statistics
Matches: 163, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 162 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:864376 original size:18 final size:18
Alignment explanation
Indices: 864353--864391 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
864343 ATGTAGTCAC
864353 CCAACTATTACTTTCATT
1 CCAACTATTACTTTCATT
864371 CCAACTATTACTTTCATT
1 CCAACTATTACTTTCATT
864389 CCA
1 CCA
864392 TTCTGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (18 bp):
CCAACTATTACTTTCATT
Found at i:869194 original size:251 final size:238
Alignment explanation
Indices: 868746--869237 Score: 851
Period size: 244 Copynumber: 2.0 Consensus size: 238
868736 TTCATTAGAA
868746 AGCTCAACCAACCAAAAGGAATATTGAACGAGCTTAGGATCGTTATTGGTGTATTTAAATACAGA
1 AGCTCAACCAACCAAAAGGAATATTGAACGAGCTTAGGATCGTTATTGGTGTATTTAAATACAGA
868811 GCTTTTGTTGTTGATTCAGTTAATTTAATTTTTATAATTATTATTATAATATTAAAATATATATA
66 GCTTTTGTTGTTGATTCAGTTAATTTAATTTTTATAATTATTATTATAATATTAAAATATATATA
868876 AATTAGATGTATATTTGATATAAACATACCCTCGACTAGAATCGATATGGGAATGAGATGACTAA
131 AATTAGATGTATATTTGATATAAACATACCCTCGACTAGAATCGATATGGGAATGAGATGACTAA
868941 TGGCAACCTTATTTAGGAGCTGTTGTTTGCCTCTTAATGGAA-CATTC
196 TGGCAACC---TTTAGGAGCTGTTGTTTG--TCTTAATGGAACCATTC
868988 AGCTCAACCAAACCAAAAGGAATATTGAAACGAGCTTAGGATCGTTATTGGTGTATTTAAATACA
1 AGCTCAACC-AACCAAAAGGAATATTG-AACGAGCTTAGGATCGTTATTGGTGTATTTAAATACA
869053 GAGCTTTTGTTGTTGATTCAGTTGTAATTTAATTTTTATAATTATTATTATAATATTTAAAATAA
64 GAGCTTTTGTTGTTGATTCAG-T-TAATTTAATTTTTATAATTATTATTATAATA-TTAAAAT-A
869118 TATATAAATTTAGATGTATATTTGTGATATAAACATACCCTCGACTAGAATCGATATGGGAATGA
125 TATATAAA-TTAGATGTATA-TT-TGATATAAACATACCCTCGACTAGAATCGATATGGGAATGA
869183 GATGACTAATGGCAACCTTTAGGAGCTGTTGTTTGTCTTAATGGAACCATTC
187 GATGACTAATGGCAACCTTTAGGAGCTGTTGTTTGTCTTAATGGAACCATTC
869235 AGC
1 AGC
869238 GTTGAATGCT
Statistics
Matches: 240, Mismatches: 0, Indels: 15
0.94 0.00 0.06
Matches are distributed among these distances:
242 9 0.04
243 17 0.07
244 58 0.24
245 1 0.00
246 42 0.17
247 15 0.06
248 27 0.11
249 11 0.05
250 2 0.01
251 58 0.24
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (238 bp):
AGCTCAACCAACCAAAAGGAATATTGAACGAGCTTAGGATCGTTATTGGTGTATTTAAATACAGA
GCTTTTGTTGTTGATTCAGTTAATTTAATTTTTATAATTATTATTATAATATTAAAATATATATA
AATTAGATGTATATTTGATATAAACATACCCTCGACTAGAATCGATATGGGAATGAGATGACTAA
TGGCAACCTTTAGGAGCTGTTGTTTGTCTTAATGGAACCATTC
Found at i:872382 original size:30 final size:29
Alignment explanation
Indices: 872338--872395 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
872328 TATTCATTTT
872338 TTAAAAATCAATAAAAATATAATAAAAAAA
1 TTAAAAATCAAT-AAAATATAATAAAAAAA
* * *
872368 TTAAAAGTGAATAAAATTTAATAAAAAA
1 TTAAAAATCAATAAAATATAATAAAAAA
872396 TAATATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (29 bp):
TTAAAAATCAATAAAATATAATAAAAAAA
Found at i:874154 original size:31 final size:29
Alignment explanation
Indices: 874119--874199 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
874109 AAACAAAACG
874119 CTCTCACCCCGTAAACATTCACACAACAATC
1 CTCTCA-CCCGTAAACA-TCACACAACAATC
* * *
874150 CTCTCAACCGAAAACATCACACAATAATC
1 CTCTCACCCGTAAACATCACACAACAATC
*
874179 CTCTCAACCCGTAAATATCAC
1 CTCTC-ACCCGTAAACATCAC
874200 CCGCTAATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
29 17 0.40
30 20 0.47
31 6 0.14
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (29 bp):
CTCTCACCCGTAAACATCACACAACAATC
Found at i:874171 original size:29 final size:30
Alignment explanation
Indices: 874131--874187 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
874121 CTCACCCCGT
874131 AAACATTCACACAACAATCCTCTCAACCGA
1 AAACATTCACACAACAATCCTCTCAACCGA
*
874161 AAACA-TCACACAATAATCCTCTCAACC
1 AAACATTCACACAACAATCCTCTCAACC
874188 CGTAAATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.18
Consensus pattern (30 bp):
AAACATTCACACAACAATCCTCTCAACCGA
Found at i:880107 original size:29 final size:31
Alignment explanation
Indices: 880074--880135 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 31
880064 CAAAAAAAAT
880074 TAATTAAATAAAATACTAA-AAAA-ATTAAA
1 TAATTAAATAAAATACTAACAAAATATTAAA
880103 TAATTAAATAAAATACTAACAAAATATTAAA
1 TAATTAAATAAAATACTAACAAAATATTAAA
880134 TA
1 TA
880136 GAATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 19 0.61
30 4 0.13
31 8 0.26
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (31 bp):
TAATTAAATAAAATACTAACAAAATATTAAA
Found at i:883213 original size:32 final size:33
Alignment explanation
Indices: 883173--883240 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
883163 ATATACTTCA
* * *
883173 CACAACTACCTTTCTGACAAGAA-TTTATTTCT
1 CACAACTACCTCTATGACAAGAATTTTAGTTCT
883205 CACAACTACCTCTATGACAAGAATTTTAGTTCT
1 CACAACTACCTCTATGACAAGAATTTTAGTTCT
883238 CAC
1 CAC
883241 GGGTATGTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 21 0.66
33 11 0.34
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.34
Consensus pattern (33 bp):
CACAACTACCTCTATGACAAGAATTTTAGTTCT
Found at i:884693 original size:25 final size:23
Alignment explanation
Indices: 884663--884719 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
884653 TATAATACTC
884663 TTAATATAAGACAATTTAGAACATA
1 TTAATATAA-A-AATTTAGAACATA
* *
884688 TTAATATTTAAAATTTTAGAATATA
1 TTAATA--TAAAAATTTAGAACATA
884713 TTAATAT
1 TTAATAT
884720 TTAAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 1 0.04
25 23 0.82
26 1 0.04
27 3 0.11
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (23 bp):
TTAATATAAAAATTTAGAACATA
Found at i:884720 original size:25 final size:25
Alignment explanation
Indices: 884677--884724 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
884667 TATAAGACAA
884677 TTTAGAACATATTAATATTTAAAAT
1 TTTAGAACATATTAATATTTAAAAT
*
884702 TTTAGAATATATTAATATTTAAA
1 TTTAGAACATATTAATATTTAAA
884725 TTAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTAGAACATATTAATATTTAAAAT
Found at i:884729 original size:12 final size:13
Alignment explanation
Indices: 884710--884740 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
884700 ATTTTAGAAT
884710 ATATTAATATTTA
1 ATATTAATATTTA
884723 A-ATTAATATTTA
1 ATATTAATATTTA
884735 ATATTA
1 ATATTA
884741 TTAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTAATATTTA
Found at i:884745 original size:16 final size:16
Alignment explanation
Indices: 884686--884774 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 16
884676 ATTTAGAACA
*
884686 TATTAATATTTAAAAT
1 TATTAATATTTAATAT
884702 T-TTAGAATATATTAATATT
1 TATT--AATAT-TTAATA-T
884721 TAAATTAATATTTAATAT
1 T--ATTAATATTTAATAT
*
884739 TATTAAT-TATTATTAT
1 TATTAATAT-TTAATAT
884755 TATTATATTATTTAGATAT
1 TATTA-A-TATTTA-ATAT
884774 T
1 T
884775 TCTATTTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 21
0.71 0.04 0.26
Matches are distributed among these distances:
15 3 0.05
16 18 0.31
17 6 0.10
18 11 0.19
19 13 0.22
20 5 0.09
22 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
TATTAATATTTAATAT
Found at i:886671 original size:25 final size:24
Alignment explanation
Indices: 886633--886683 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
886623 GTGTATAATA
*
886633 TAAAATTAATTTAAATAAAATATAT
1 TAAAATTAATTTAAAAAAAAT-TAT
886658 TAAAATCTAA-TTAAAAAAAATTAT
1 TAAAAT-TAATTTAAAAAAAATTAT
886682 TA
1 TA
886684 GCTTATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 16 0.67
26 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAATTAATTTAAAAAAAATTAT
Found at i:888511 original size:16 final size:15
Alignment explanation
Indices: 888486--888515 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
888476 TGAGCTTAAA
888486 ATATATATTTAATAT
1 ATATATATTTAATAT
888501 ATATAATATTTAATA
1 ATAT-ATATTTAATA
888516 ATTTCAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATTTAATAT
Found at i:889734 original size:3 final size:3
Alignment explanation
Indices: 889726--889757 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
889716 GGATTACTGT
*
889726 TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
889758 TGTAATATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:894030 original size:45 final size:46
Alignment explanation
Indices: 893970--894091 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 46
893960 TGCACTAAGT
* * *
893970 GTGCAACGATGCATAAAATGCATTCGATGTTTTTAAT-AAGCCTAA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAA
* * *
894015 GTGCATCGATGCATAAAATGCAATCGATGTTTTCATTAAAACCTGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAA
* *
894061 GTGCATCGATGCATAAACTACATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
894092 CAATTTATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 33 0.49
46 34 0.51
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (46 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTAA
Found at i:896037 original size:23 final size:23
Alignment explanation
Indices: 896005--896086 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
895995 GCATGGCTTT
*
896005 GTGCACCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTCAAGGA
*
896028 GTGCATCGATGCATC-TTC-ATGA
1 GTGCATCGATGCA-CATTCAAGGA
* *
896050 -TGTATCGATGCACATACAAAGG-
1 GTGCATCGATGCACATTC-AAGGA
896072 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
896087 TATTAAATGT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 3 0.06
23 17 0.36
24 13 0.28
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAGGA
Found at i:896097 original size:44 final size:44
Alignment explanation
Indices: 896011--896105 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
896001 CTTTGTGCAC
* *
896011 CGATGCACATTCAAGGAGTGCATCGATGCATCTTCATGATGTAT
1 CGATGCACATACAAGGAGTGCATCGATGCATCTTCATAATGTAT
*
896055 CGATGCACATACAAAGG-GATGCATCGATGCA-CTATTA-AATGTAT
1 CGATGCACATAC-AAGGAG-TGCATCGATGCATCT-TCATAATGTAT
896099 CGATGCA
1 CGATGCA
896106 TTAAGCACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
44 27 0.60
45 18 0.40
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
CGATGCACATACAAGGAGTGCATCGATGCATCTTCATAATGTAT
Found at i:900155 original size:345 final size:345
Alignment explanation
Indices: 899520--900215 Score: 1302
Period size: 345 Copynumber: 2.0 Consensus size: 345
899510 TTCTCTCCTC
*
899520 CCTTAGTTCTTTGCTTTTATATTTTGTTATTGGGTTGTAAGGAATGAATGATACTTACTTTGTGC
1 CCTTAGTTCTTTGCTTTCATATTTTGTTATTGGGTTGTAAGGAATGAATGATACTTACTTTGTGC
* *
899585 TTGTTTATTTTGAACCCCACCATGATCTAATCCTATTTGGTGGGAGTTCACTTGGATGTTTAAGT
66 TTGTTTATTTCGAACCCCACCATGAACTAATCCTATTTGGTGGGAGTTCACTTGGATGTTTAAGT
*
899650 TTTTATTTCAATGAATGGTTGCTTTGCTATGCTTTAATCTATTTTGTTTATGAAACTTAATGCTT
131 TTTTATTTCAATGAATGATTGCTTTGCTATGCTTTAATCTATTTTGTTTATGAAACTTAATGCTT
*
899715 TGAGGTTGTGGGAGCTATGAGAGTAGCCTTTCCTTAGAAGGTGCTTAAGGTTTGAGAGAATGCCT
196 TGAGGTTGTGGGAGCTATGAGAGTAGCCTTTCCTTAGAAGGTGCTTAAGGTTCGAGAGAATGCCT
*
899780 TGGCAAAAATATCTTTAGTCTTCGAGAGAAGCTAGGGAGGAACTACATAAACAAAGGGCTCTAGG
261 TGGCAAAAATATCTTTAGTCTTCAAGAGAAGCTAGGGAGGAACTACATAAACAAAGGGCTCTAGG
899845 TAGTAACTAGGCCTAATCCA
326 TAGTAACTAGGCCTAATCCA
*
899865 CCTTAGTTCTTTGCTTTCATATTTTGTTATTGGGTTGTAAGGAATGAATGATACTTGCTTTGTGC
1 CCTTAGTTCTTTGCTTTCATATTTTGTTATTGGGTTGTAAGGAATGAATGATACTTACTTTGTGC
899930 TTGTTTATTTCGAACCCCACCATGAACTAATCCTATTTGGTGGGAGTTCACTTGGATGTTTAAGT
66 TTGTTTATTTCGAACCCCACCATGAACTAATCCTATTTGGTGGGAGTTCACTTGGATGTTTAAGT
899995 TTTTATTTCAATGAATGATTGCTTTGCTATGCTTTAATCTATTTTGTTTATGAAACTTAATGCTT
131 TTTTATTTCAATGAATGATTGCTTTGCTATGCTTTAATCTATTTTGTTTATGAAACTTAATGCTT
*
900060 TGAGGTTGTGGGAGCTATGAGAGTAGCCTTTCCTTAGAAGGTGCTTAGGGTTCGAGAGAATGCCT
196 TGAGGTTGTGGGAGCTATGAGAGTAGCCTTTCCTTAGAAGGTGCTTAAGGTTCGAGAGAATGCCT
*
900125 TGGCAAAAATATCTTTAGTCTTCAAGAGAAGCTAGGGAGGAACTACATAAACAAAGGGCTCTATG
261 TGGCAAAAATATCTTTAGTCTTCAAGAGAAGCTAGGGAGGAACTACATAAACAAAGGGCTCTAGG
*
900190 TAGTAACTAGGCCTAATTCA
326 TAGTAACTAGGCCTAATCCA
900210 CCTTAG
1 CCTTAG
900216 AGATAAGGAT
Statistics
Matches: 341, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
345 341 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (345 bp):
CCTTAGTTCTTTGCTTTCATATTTTGTTATTGGGTTGTAAGGAATGAATGATACTTACTTTGTGC
TTGTTTATTTCGAACCCCACCATGAACTAATCCTATTTGGTGGGAGTTCACTTGGATGTTTAAGT
TTTTATTTCAATGAATGATTGCTTTGCTATGCTTTAATCTATTTTGTTTATGAAACTTAATGCTT
TGAGGTTGTGGGAGCTATGAGAGTAGCCTTTCCTTAGAAGGTGCTTAAGGTTCGAGAGAATGCCT
TGGCAAAAATATCTTTAGTCTTCAAGAGAAGCTAGGGAGGAACTACATAAACAAAGGGCTCTAGG
TAGTAACTAGGCCTAATCCA
Found at i:902350 original size:117 final size:117
Alignment explanation
Indices: 902130--902351 Score: 281
Period size: 117 Copynumber: 1.9 Consensus size: 117
902120 CATTCAAATC
* * *
902130 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATTCTTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAAATTT
*
902195 CATTTTGATTTTCAAAATCCATTTTCATTTCAAGAAGAAGTTTGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTGCATTTCAAGAAGAAGTTTGTTTAATTT
* * * *
902247 GAAAATTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAAAAT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAAAAT
* * *
902310 TTCTTTTTGATTTTCTAAATCTAGTTTGGC-TTTCAA-AAGAAG
64 TTCATTTTGATTTTCAAAATCCA-TTT-GCATTTCAAGAAGAAG
902352 ATCATTTTTA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
116 2 0.02
117 78 0.87
118 9 0.10
119 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAAATTT
CATTTTGATTTTCAAAATCCATTTGCATTTCAAGAAGAAGTTTGTTTAATTT
Found at i:903742 original size:45 final size:46
Alignment explanation
Indices: 903682--903786 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 46
903672 TGCACTAAGT
* * *
903682 GTGCATCGATGCATAAAATGCATTCGATGTTTTTAATA-AGCCTAA
1 GTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAGAACCTAA
* *
903727 GTGCATCGATGCATAAAATGCAATCGATGTTTTCATTAGAACCTGA
1 GTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAGAACCTAA
903773 GTGCATCGATGCAT
1 GTGCATCGATGCAT
903787 GGAGAGTGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 35 0.65
46 19 0.35
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (46 bp):
GTGCATCGATGCATAAAATGCAATCGATGTTTTCAATAGAACCTAA
Found at i:903861 original size:20 final size:20
Alignment explanation
Indices: 903833--903870 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
903823 CAATTTATTC
*
903833 ATTGGTGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
*
903853 ATTGATGCATCGGTGCAT
1 ATTGATGCATCGATGCAT
903871 TCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:904212 original size:24 final size:24
Alignment explanation
Indices: 904181--904226 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
904171 AAAAAAAGCG
*
904181 AAAAATATACCACAAAGGCAAAGA
1 AAAAATATACCACAAAAGCAAAGA
*
904205 AAAAATATATCACAAAAGCAAA
1 AAAAATATACCACAAAAGCAAA
904227 ATTACTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.65, C:0.15, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAAATATACCACAAAAGCAAAGA
Found at i:924710 original size:21 final size:21
Alignment explanation
Indices: 924661--924703 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
924651 GATCCTTATG
924661 GAACAAATCCACAGCTTTGTC
1 GAACAAATCCACAGCTTTGTC
*
924682 GAACAAATCCACATCTTTGTC
1 GAACAAATCCACAGCTTTGTC
924703 G
1 G
924704 GGCAAATGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (21 bp):
GAACAAATCCACAGCTTTGTC
Found at i:931517 original size:17 final size:17
Alignment explanation
Indices: 931491--931528 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
931481 AATTAAATAC
*
931491 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
931507 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
931524 AATAC
1 AATAC
931529 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:931533 original size:24 final size:24
Alignment explanation
Indices: 931506--931551 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
931496 TAAATAATTT
*
931506 AAATACTTAAATA-AATTAAATACA
1 AAATA-TTAAATATAATAAAATACA
931530 AAATATTAAATATAATAAAATA
1 AAATATTAAATATAATAAAATA
931552 TACCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATTAAATATAATAAAATACA
Found at i:932813 original size:18 final size:18
Alignment explanation
Indices: 932790--932826 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
932780 CGAAATTTAT
932790 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
932808 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
932826 A
1 A
932827 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:933247 original size:25 final size:25
Alignment explanation
Indices: 933213--933262 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
933203 ATTATTTTTC
*
933213 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
933238 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
933263 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:940278 original size:12 final size:12
Alignment explanation
Indices: 940261--940304 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
940251 ATAATGAGAT
940261 TATTTTAAATTA
1 TATTTTAAATTA
940273 TATTTTAAATTA
1 TATTTTAAATTA
* *
940285 TATTTAAAAATA
1 TATTTTAAATTA
940297 TATATTTA
1 TAT-TTTA
940305 TTATTCGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTTTAAATTA
Found at i:940444 original size:17 final size:17
Alignment explanation
Indices: 940424--940462 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
940414 TTGGTTTAGA
*
940424 TTAAATTCTTATATGAT
1 TTAAATTCTTATATAAT
* *
940441 TTAAATTGTTATCTAAT
1 TTAAATTCTTATATAAT
940458 TTAAA
1 TTAAA
940463 ATGAGTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (17 bp):
TTAAATTCTTATATAAT
Found at i:941119 original size:26 final size:26
Alignment explanation
Indices: 941087--941140 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
941077 GGCCTTTTTA
941087 TAAATAAATAGGTA-TCGTAGTTGGGC
1 TAAATAAATAGGTATTC-TAGTTGGGC
941113 TAAATAAATAGGTATTCTAGTTGGGC
1 TAAATAAATAGGTATTCTAGTTGGGC
941139 TA
1 TA
941141 TAGGTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.33
Consensus pattern (26 bp):
TAAATAAATAGGTATTCTAGTTGGGC
Found at i:941145 original size:20 final size:20
Alignment explanation
Indices: 941120--941165 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
941110 GGCTAAATAA
*
941120 ATAGGTATTCTAGTTGGGCT
1 ATAGGTATTCTAGTTGGGCC
*
941140 ATAGGTATTGTAGTTGGGCC
1 ATAGGTATTCTAGTTGGGCC
941160 ATAGGT
1 ATAGGT
941166 TTAGGCTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.37
Consensus pattern (20 bp):
ATAGGTATTCTAGTTGGGCC
Found at i:941271 original size:76 final size:76
Alignment explanation
Indices: 941144--941294 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
941134 TGGGCTATAG
941144 GTATTGTAGTTGGGCCATAGGTTTAGGCTACTATTTGTAATAGGTTATAAACCTAATATTAGGGT
1 GTATTGTAGTTGGGCCATAGGTTTAGGCTACTATTTGTAATAGGTTATAAACCTAATATTAGGGT
941209 TAAAAGATTAA
66 TAAAAGATTAA
* *
941220 GTATTGTAGTTGGGCCATAGGTTTAGGCTACTGTTTGTAATAGGTTGTAAACCTAATATTAGGGT
1 GTATTGTAGTTGGGCCATAGGTTTAGGCTACTATTTGTAATAGGTTATAAACCTAATATTAGGGT
*
941285 TAAAATATTA
66 TAAAAGATTA
941295 GATTCCTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (76 bp):
GTATTGTAGTTGGGCCATAGGTTTAGGCTACTATTTGTAATAGGTTATAAACCTAATATTAGGGT
TAAAAGATTAA
Found at i:956663 original size:21 final size:21
Alignment explanation
Indices: 956639--956800 Score: 153
Period size: 21 Copynumber: 8.1 Consensus size: 21
956629 CAACGCGATT
*
956639 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCACG
** * *
956660 TTGCGATTTTCCAAATTTACG
1 TTGCGATAGTCCAAGTTCACG
*
956681 TT---A-A-TCCAAATT--CG
1 TTGCGATAGTCCAAGTTCACG
956695 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTTCACG
*
956716 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCACG
** *
956737 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCACG
956756 TTGCGATAGTCCAAGTTCACG
1 TTGCGATAGTCCAAGTTCACG
* *
956777 TTGCGATAGTCTAAGTTCGCG
1 TTGCGATAGTCCAAGTTCACG
956798 TTG
1 TTG
956801 TGATTTTCCA
Statistics
Matches: 116, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.03
16 8 0.07
17 1 0.01
18 2 0.02
19 23 0.20
21 78 0.67
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCACG
Found at i:956768 original size:61 final size:61
Alignment explanation
Indices: 956685--956812 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 61
956675 TTTACGTTAA
956685 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
* *
956746 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCTAAGTTCGCGTTGTGATTT
1 TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
956807 TCCAAA
1 TCCAAA
956813 ATCGCAATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (61 bp):
TCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
Found at i:957171 original size:18 final size:18
Alignment explanation
Indices: 957148--957182 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
957138 TATTTTGGAT
957148 TTTTCACTATCGCAACAC
1 TTTTCACTATCGCAACAC
957166 TTTTCACTATCGCAACA
1 TTTTCACTATCGCAACA
957183 ATACGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.34
Consensus pattern (18 bp):
TTTTCACTATCGCAACAC
Found at i:958231 original size:20 final size:20
Alignment explanation
Indices: 958208--958312 Score: 108
Period size: 20 Copynumber: 5.2 Consensus size: 20
958198 TGCGATTTTC
*
958208 CAAATTCGCAAGGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
958228 CAAATTCGCAACGCGAATTTGT
1 CAAATTCGCAACGCGAA--AGT
*
958250 -AAA-TCGCAACAC-ATAAGT
1 CAAATTCGCAACGCGA-AAGT
* * *
958268 CAAATTTGCAATGCGATAGT
1 CAAATTCGCAACGCGAAAGT
958288 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
958308 CAAAT
1 CAAAT
958313 GTTTTTACGC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.03
19 4 0.06
20 56 0.82
21 4 0.06
22 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:958467 original size:22 final size:23
Alignment explanation
Indices: 958439--958490 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
958429 CTACGGCGAC
*
958439 ATCCGTCTC-CATCTCCGACGAA
1 ATCCGTCTCTCATCTCCGACAAA
*
958461 ATCCGTC-CTCATTTCCGACAAA
1 ATCCGTCTCTCATCTCCGACAAA
*
958483 ATCTGTCT
1 ATCCGTCT
958491 ATCTCCATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.23, C:0.37, G:0.12, T:0.29
Consensus pattern (23 bp):
ATCCGTCTCTCATCTCCGACAAA
Found at i:958715 original size:13 final size:13
Alignment explanation
Indices: 958697--958723 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
958687 GAAGTTAGTA
958697 TTTGTCTTTTTGT
1 TTTGTCTTTTTGT
958710 TTTGTCTTTTTGT
1 TTTGTCTTTTTGT
958723 T
1 T
958724 GAAGAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.15, T:0.78
Consensus pattern (13 bp):
TTTGTCTTTTTGT
Found at i:960764 original size:4 final size:4
Alignment explanation
Indices: 960755--960792 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
960745 TTTTTCGGCA
960755 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
960793 TTATTTTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:960985 original size:42 final size:41
Alignment explanation
Indices: 960938--961030 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
960928 GCCCGATGCA
* * * *
960938 CCTATCATCATTCAAGAGGCGCCTC-CTATCGTTCAAGAGGCT
1 CCTATCATCATTCAAGAAGCCCCTCTC-ACCGTTCAAGA-GCC
*
960980 CCTATCATCATTGAAGAAGCCCCTCTCACCGTTCAAGAGCC
1 CCTATCATCATTCAAGAAGCCCCTCTCACCGTTCAAGAGCC
961021 CCTATCATCA
1 CCTATCATCA
961031 GGATGCGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 12 0.27
42 32 0.71
43 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (41 bp):
CCTATCATCATTCAAGAAGCCCCTCTCACCGTTCAAGAGCC
Found at i:960996 original size:21 final size:21
Alignment explanation
Indices: 960938--961030 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
960928 GCCCGATGCA
960938 CCTATCATCATTCAAGAGGCG
1 CCTATCATCATTCAAGAGGCG
* * *
960959 CCT-CCTATCGTTCAAGAGGCT
1 CCTATC-ATCATTCAAGAGGCG
* * *
960980 CCTATCATCATTGAAGAAGCC
1 CCTATCATCATTCAAGAGGCG
* * * *
961001 CCTCTCACCGTTCAAGA-GCC
1 CCTATCATCATTCAAGAGGCG
961021 CCTATCATCA
1 CCTATCATCA
961031 GGATGCGTGT
Statistics
Matches: 55, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
20 11 0.20
21 43 0.78
22 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.15, T:0.25
Consensus pattern (21 bp):
CCTATCATCATTCAAGAGGCG
Found at i:961676 original size:15 final size:15
Alignment explanation
Indices: 961656--961742 Score: 67
Period size: 15 Copynumber: 5.8 Consensus size: 15
961646 CATTTTACTT
961656 AAATTATTATTATTA
1 AAATTATTATTATTA
961671 AAATTATTAAAATTATTA
1 AAATTATT---ATTATTA
961689 TAAA-TATTATTATT-
1 -AAATTATTATTATTA
*
961703 ATATTATTATTA-TA
1 AAATTATTATTATTA
**
961717 TTA-TATTATTATT-
1 AAATTATTATTATTA
961730 AAATATATTATTA
1 AAAT-TATTATTA
961743 CAAGGCCCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.20
14 11 0.19
15 22 0.37
18 11 0.19
19 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATTATTATTATTA
Found at i:961709 original size:8 final size:8
Alignment explanation
Indices: 961696--961742 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
961686 TTATAAATAT
961696 TATTATTA
1 TATTATTA
961704 TATTATTA
1 TATTATTA
961712 T-TATATTA
1 TAT-TATTA
961720 TATTATTA
1 TATTATTA
* *
961728 T-TAAATA
1 TATTATTA
961735 TATTATTA
1 TATTATTA
961743 CAAGGCCCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.19
8 25 0.78
9 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:961741 original size:18 final size:19
Alignment explanation
Indices: 961658--961742 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 19
961648 TTTTACTTAA
961658 ATTATTATTATTAAA-ATT
1 ATTATTATTATTAAATATT
961676 ATTAAAATTATTA-TAAATATT
1 ATT---ATTATTATTAAATATT
*
961697 ATTATTATATTATTATTATATT
1 ATTA-T-TATTATTA-AATATT
961719 A-TATTATTATTAAATA-T
1 ATTATTATTATTAAATATT
961736 ATTATTA
1 ATTATTA
961743 CAAGGCCCAA
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
17 2 0.04
18 12 0.21
19 9 0.16
20 10 0.18
21 17 0.30
22 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTATTATTATTAAATATT
Found at i:961742 original size:3 final size:3
Alignment explanation
Indices: 961658--961730 Score: 71
Period size: 3 Copynumber: 25.3 Consensus size: 3
961648 TTTTACTTAA
** ** * *
961658 ATT ATT ATT ATT AAA ATT ATT AAA ATT ATT ATA AAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
961705 ATT ATT ATT A-T ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
961731 AATATATTAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
2 6 0.11
3 49 0.89
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:962442 original size:13 final size:13
Alignment explanation
Indices: 962424--962452 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
962414 CCACCGTTCA
962424 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
962437 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
962450 CGG
1 CGG
962453 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:962757 original size:12 final size:12
Alignment explanation
Indices: 962742--962771 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
962732 ATTATATTTA
962742 ATTTTATAATAT
1 ATTTTATAATAT
*
962754 ATTTTATAATTT
1 ATTTTATAATAT
962766 ATTTTA
1 ATTTTA
962772 ATTTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTTATAATAT
Found at i:962772 original size:30 final size:31
Alignment explanation
Indices: 962732--962808 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
962722 AATTTATTTA
*
962732 ATTATATTTAATTTTATAA-TATATTTTATAAT
1 ATTAT-TTTAATTTTATAATTA-ATTTAATAAT
*
962764 -TTATTTTAATTTAATAATTAATTTAATAAT
1 ATTATTTTAATTTTATAATTAATTTAATAAT
* *
962794 AATGTTTTAATTTTA
1 ATTATTTTAATTTTA
962809 ATCGAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
30 21 0.55
31 17 0.45
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
ATTATTTTAATTTTATAATTAATTTAATAAT
Found at i:962784 original size:12 final size:12
Alignment explanation
Indices: 962769--962793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
962759 ATAATTTATT
962769 TTAATTTAATAA
1 TTAATTTAATAA
962781 TTAATTTAATAA
1 TTAATTTAATAA
962793 T
1 T
962794 AATGTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTAATTTAATAA
Found at i:963785 original size:16 final size:16
Alignment explanation
Indices: 963746--963785 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
963736 TTCTTTCAAA
*
963746 TTTTTATTATTATTAT
1 TTTTTATTAATATTAT
*
963762 TTTATATTAATATTAT
1 TTTTTATTAATATTAT
963778 TTTTTATT
1 TTTTTATT
963786 CAGGTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTATTAATATTAT
Found at i:968366 original size:12 final size:11
Alignment explanation
Indices: 968338--968362 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
968328 TCCAACAAAG
968338 AAAGAAGAAAA
1 AAAGAAGAAAA
968349 AAAGAAGAAAA
1 AAAGAAGAAAA
968360 AAA
1 AAA
968363 AGAAAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAAA
Found at i:970438 original size:114 final size:115
Alignment explanation
Indices: 970290--970598 Score: 437
Period size: 114 Copynumber: 2.7 Consensus size: 115
970280 GTGCTCATAA
*
970290 CATCTTCTGGAAGTGTTCTTTGAGTTATCAGATCTGGTTTGGTATGAACCCCAAAAACCAATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCAT
970355 TGGATTTGAAAGAT-AATGTGATCATAGTAGAAATAAGAAGACCCAATAG
66 TGGATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCAATAG
* * *
970404 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGTTATGAA-ACCACAGAACCAATCA
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCA-AAAACCAATCA
* * * *
970468 TTGGATTTGAAAGATGAATTTGCTTATAGTAGAAATAAGGAGACCCAATAG
65 TTGGATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCAATAG
* * * * * * *
970519 CATATTCTGGAAGCGTTCTTTGAGTTATCT-ATCTGATTCGGTAGGAACCCC-ATAACCGATCAT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCAT
*
970582 TGGAATTGAAAGATGAA
66 TGGATTTGAAAGATGAA
970599 CTGCATGATC
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
113 29 0.17
114 84 0.48
115 61 0.35
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (115 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAATCAT
TGGATTTGAAAGATGAATGTGATCATAGTAGAAATAAGAAGACCCAATAG
Found at i:971692 original size:76 final size:76
Alignment explanation
Indices: 971541--971719 Score: 209
Period size: 76 Copynumber: 2.4 Consensus size: 76
971531 ATTAACAAGA
* * * *
971541 AACAAATGTTGGGGCATGCTGAAA-ACCCTTGTCAATCAGAATCAGGAATGTTGATGTATCCTGA
1 AACAAATGCTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGA
* *
971605 ATGTTTATATC
66 ACGTTCATATC
* **
971616 AACAAAATGCTAGGGCATGCTGAAAGCCCCTT-TCAATCAGAATGAAGAATGTTGATGTATTTTG
1 AAC-AAATGCTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTG
*
971680 AACGTTCGTATC
65 AACGTTCATATC
* * * *
971692 AGCAATTGTTAGGGCATGCTGAAGGCCC
1 AACAAATGCTAGGGCATGCTGAAAGCCC
971720 ACATCATCAT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
75 25 0.28
76 58 0.66
77 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (76 bp):
AACAAATGCTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGA
ACGTTCATATC
Found at i:973023 original size:22 final size:22
Alignment explanation
Indices: 972998--973074 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
972988 ATCTACATTC
972998 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
973020 TTCAAAGATAAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
973042 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
973064 TTCAAAGATGA
1 TTCAAAGATGA
973075 AAGCTTTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:973918 original size:75 final size:76
Alignment explanation
Indices: 973752--974799 Score: 1672
Period size: 75 Copynumber: 13.9 Consensus size: 76
973742 CTATTTCCCA
* * * *
973752 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGTTTTTTGATGTTCTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
973817 AACCTTAGGGT
66 AGCCTTAGGGT
973828 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
973892 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
973903 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
973966 AGCCTTAGGGT
66 AGCCTTAGGGT
973977 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
974042 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
974053 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974117 AGCCTTCA-GGT
66 AGCCTT-AGGGT
* * *
974128 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974192 AGCCTTAGGGT
66 AGCCTTAGGGT
*
974203 CATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
974268 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
974279 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974343 AGCCTTAGGGT
66 AGCCTTAGGGT
*
974354 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974418 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
974429 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974493 AGCCTTA-GGT
66 AGCCTTAGGGT
*
974503 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
974567 AGCCTTCGGGT
66 AGCCTTAGGGT
* *
974578 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
974642 AGCCTTAGGGT
66 AGCCTTAGGGT
*
974653 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAAAAGCCTTCGGGAGCTTTTTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC----AAAAAGCCTTCGGGAGCTTTTTGATGTTT
* *
974718 TC-AAGTCTTCGGGT
62 TCAAAGCCTTAGGGT
*
974732 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
974797 AAA
64 AAA
974800 ACCCTTCAAT
Statistics
Matches: 910, Mismatches: 46, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
73 3 0.00
74 125 0.14
75 486 0.53
76 190 0.21
77 33 0.04
78 2 0.00
79 71 0.08
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:974269 original size:226 final size:226
Alignment explanation
Indices: 973752--974799 Score: 1739
Period size: 226 Copynumber: 4.6 Consensus size: 226
973742 CTATTTCCCA
* * * *
973752 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAATCCTTCGGGAGTTTTTTGATGTTCTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
973817 AACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
973881 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATG-TTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
973946 GGGATC-TTTTGATGTTTTAAAGCCTTAGGGT
195 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
973977 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
974042 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
974107 GATGTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 GATGTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
*
974172 AGATCTTTTTGATGTTTTAAAGCCTTAGGGT
196 GGATCTTTTTGATGTTTTAAAGCCTTAGGGT
*
974203 CATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
974268 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * *
974333 GATGTTTTAAAGCCTT-AGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTCAAAGCCTTCA-GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
*
974397 GGGAGCTTTTTGATGTTTTAAAGCCTTAGGGT
195 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
* * *
974429 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
974493 AGCCTT-AGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
974557 GATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 GATGTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
974622 GGATCTTTTTGATGTTTTAAAGCCTTAGGGT
196 GGATCTTTTTGATGTTTTAAAGCCTTAGGGT
*
974653 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAAAAGCCTTCGGGAGCTTTTTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC----AAAAAGCCTTCGGGAGCTTTTTGATGTTT
* *
974718 TC-AAGTCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAAAGCCTTCGGGAG
62 TCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC--AAAAAGCCTTCGGGAG
974782 CTTTTTGATGTTTTCAAA
125 CTTTTTGATG-TTTCAAA
974800 ACCCTTCAAT
Statistics
Matches: 775, Mismatches: 35, Indels: 19
0.93 0.04 0.02
Matches are distributed among these distances:
224 174 0.22
225 185 0.24
226 314 0.41
228 34 0.04
229 35 0.05
231 26 0.03
232 7 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (226 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGATCTTTTTGATGTTTTAAAGCCTTAGGGT
Found at i:974993 original size:15 final size:15
Alignment explanation
Indices: 974973--975067 Score: 64
Period size: 15 Copynumber: 6.8 Consensus size: 15
974963 CATTTTACTT
974973 AAATTATTATTATTA
1 AAATTATTATTATTA
974988 AAATTATTATTATT-
1 AAATTATTATTATTA
975002 --ATTATTA-TA--A
1 AAATTATTATTATTA
*
975012 ATATTATTATTA-TA
1 AAATTATTATTATTA
**
975026 TTATTATTA-TATTA
1 AAATTATTATTATTA
* *
975040 TATTATATTATTATT-
1 AAAT-TATTATTATTA
975055 AAATATATTATTA
1 AAAT-TATTATTA
975068 CAAGGCCCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
11 2 0.03
12 14 0.21
13 4 0.06
14 13 0.19
15 30 0.45
16 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTATTATTATTA
Found at i:974996 original size:18 final size:17
Alignment explanation
Indices: 974975--975067 Score: 109
Period size: 18 Copynumber: 5.4 Consensus size: 17
974965 TTTTACTTAA
*
974975 ATTATTATTATTAAAATT
1 ATTATTATTATT-ATATT
*
974993 ATTATTATTATTATTATA
1 ATTATTATTATTA-TATT
*
975011 AATATTATTATTATATT
1 ATTATTATTATTATATT
975028 ATTATTA-TATTATATT
1 ATTATTATTATTATATT
*
975044 A-TATTATTATTAAATAT
1 ATTATTATTATTATAT-T
975061 ATTATTA
1 ATTATTA
975068 CAAGGCCCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
15 5 0.08
16 17 0.26
17 12 0.18
18 31 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATTATTATTATATT
Found at i:975048 original size:29 final size:26
Alignment explanation
Indices: 974975--975067 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 26
974965 TTTTACTTAA
974975 ATTATTATTATTAAA-ATTATTA-T-T
1 ATTATTATTA-TAAATATTATTATTAT
974999 ATTATTATTATAAATATTATTATTAT
1 ATTATTATTATAAATATTATTATTAT
975025 ATTATTA-T-T--ATATTA-TATTAT
1 ATTATTATTATAAATATTATTATTAT
975046 ATTATTATTA-AATATATTATTA
1 ATTATTATTATAA-ATATTATTA
975068 CAAGGCCCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
21 13 0.22
22 7 0.12
23 4 0.07
24 18 0.30
25 8 0.13
26 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTATTATTATAAATATTATTATTAT
Found at i:975067 original size:3 final size:3
Alignment explanation
Indices: 974975--975055 Score: 98
Period size: 3 Copynumber: 28.3 Consensus size: 3
974965 TTTTACTTAA
** * *
974975 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
975023 A-T ATT ATT ATT A-T ATT A-T ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
975056 AATATATTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 8 0.12
3 58 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:976641 original size:106 final size:104
Alignment explanation
Indices: 976473--976663 Score: 233
Period size: 106 Copynumber: 1.8 Consensus size: 104
976463 TTCAATAAAA
** * * *
976473 TAATTTTAATATTTATTTTTCAATATCAAAGAAAAGGGCAGTCTTAATACAACTGGATGTCCTAT
1 TAATTTTAATATTTATTTTTCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTAT
*
976538 TCTGGTATTTTAAAAATAAATGCTATAAAAAATTATTATT
66 TCTGATATTTT-AAAATAAATGCTATAAAAAATTATTATT
* * *
976578 TAATTTTAA-ATTAATATTTATT-AATATCAAAGAAAAGAACTGTCTTAAGGCACCTAGAAGTCC
1 TAATTTTAATATT--TATTT-TTCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCC
* *
976641 TTTTCTGATATTTTTAAATAAAT
63 TATTCTGATATTTTAAAATAAAT
976664 AAATATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
104 3 0.04
105 17 0.24
106 50 0.69
107 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (104 bp):
TAATTTTAATATTTATTTTTCAATATCAAAGAAAAGAACAGTCTTAAGACAACTAGAAGTCCTAT
TCTGATATTTTAAAATAAATGCTATAAAAAATTATTATT
Found at i:977812 original size:61 final size:65
Alignment explanation
Indices: 977729--977868 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
977719 TTTCACATTG
977729 AAAGTTGATTTG-TTACAATTGA-TGAGGAAATAAG-ATT-TATTTT-TTGATTAATTAATTTGT
1 AAAGTTGATTTGTTTACAATTGATTGA-GAAATAAGAATTATATTTTATTGATTAATTAATTTGT
977789 A
65 A
* * * * * *
977790 AAAGTTGATTTGTTTA-ATTTGATTTATAAATAAGAATTATTTTTTACTTGTTTAATTGATTTGT
1 AAAGTTGATTTGTTTACAATTGATTGAGAAATAAGAATTATATTTTA-TTGATTAATTAATTTGT
977854 A
65 A
977855 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
977869 GTTTCTAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
61 24 0.36
62 8 0.12
63 5 0.07
65 30 0.45
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.50
Consensus pattern (65 bp):
AAAGTTGATTTGTTTACAATTGATTGAGAAATAAGAATTATATTTTATTGATTAATTAATTTGTA
Found at i:978505 original size:18 final size:18
Alignment explanation
Indices: 978482--978518 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
978472 CGAAATTTAT
978482 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
978500 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
978518 A
1 A
978519 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:978939 original size:25 final size:25
Alignment explanation
Indices: 978905--978954 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
978895 ATTATTTTTC
*
978905 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
978930 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
978955 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:979428 original size:18 final size:18
Alignment explanation
Indices: 979405--979440 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
979395 AAGCCGGTTG
*
979405 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
979423 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
979441 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:982690 original size:20 final size:20
Alignment explanation
Indices: 982654--982821 Score: 130
Period size: 20 Copynumber: 8.6 Consensus size: 20
982644 ACTAAAACCT
*
982654 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTCGC
*
982673 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
**
982692 GTTGCGAATTTGAAATT-TA
1 GTTGCGAATTTGAAATTCGC
* *
982711 GTTACGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
* ** *
982730 GTTGTGAATTTGACTTTCAC
1 GTTGCGAATTTGAAATTCGC
* **
982750 GTTACGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
**
982770 GTTGCGAATTTGACTTTCGC
1 GTTGCGAATTTGAAATTCGC
** *
982790 GTTGATAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
982810 GTTGCGAATTTG
1 GTTGCGAATTTG
982822 GAAAATTGCA
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 60 0.48
20 66 0.52
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:982738 original size:19 final size:19
Alignment explanation
Indices: 982654--982782 Score: 125
Period size: 19 Copynumber: 6.7 Consensus size: 19
982644 ACTAAAACCT
* *
982654 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTC-A
982673 GTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
*
982692 GTTGCGAATTTGAAATTTA
1 GTTGCGAATTTGAAATTCA
*
982711 GTTACGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
* **
982730 GTTGTGAATTTGACTTTCA
1 GTTGCGAATTTGAAATTCA
* ** *
982749 CGTTACGAATTTGACTTTCGC
1 -GTTGCGAATTTGAAATTC-A
982770 GTTGCGAATTTGA
1 GTTGCGAATTTGA
982783 CTTTCGCGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
19 60 0.64
20 34 0.36
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:982842 original size:21 final size:21
Alignment explanation
Indices: 982812--982861 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
982802 ACTATCGCGT
*
982812 TGCGAATTTGGAAAATTGCAA
1 TGCGATTTTGGAAAATTGCAA
982833 TGCGATTTTGGAAAATTGCAA
1 TGCGATTTTGGAAAATTGCAA
982854 TGCGATTT
1 TGCGATTT
982862 ACATATTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (21 bp):
TGCGATTTTGGAAAATTGCAA
Found at i:988531 original size:2 final size:2
Alignment explanation
Indices: 988524--988566 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
988514 TTCCCTAAGT
988524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
988566 T
1 T
988567 GATCAATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:989076 original size:38 final size:36
Alignment explanation
Indices: 989000--989076 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
988990 TTTTTATATT
*
989000 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
989036 TTTAATTTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAA-AAAATTATATAAATATTAT-CAA
989074 TTT
1 TTT
989077 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 5 0.14
37 21 0.60
38 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:989258 original size:20 final size:20
Alignment explanation
Indices: 989222--989259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
989212 ATCTTATTCC
**
989222 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
989242 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
989260 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:992095 original size:18 final size:18
Alignment explanation
Indices: 992067--992107 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
992057 TCCTCTAAAA
*
992067 ATTTAAAAATATCATATAT
1 ATTTTAAAATAT-ATATAT
992086 -TTTTAAAATATATATAT
1 ATTTTAAAATATATATAT
992103 ATTTT
1 ATTTT
992108 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTAAAATATATATAT
Found at i:992110 original size:20 final size:19
Alignment explanation
Indices: 992068--992108 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
992058 CCTCTAAAAA
992068 TTTAAAAATATCATATATT
1 TTTAAAAATATCATATATT
992087 TTTAAAATATAT-ATATATT
1 TTTAAAA-ATATCATATATT
992106 TTT
1 TTT
992109 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAAATATCATATATT
Found at i:996029 original size:2 final size:2
Alignment explanation
Indices: 996022--996060 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
996012 GTCAATACAA
*
996022 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
996061 ATTGAGATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:996815 original size:2 final size:2
Alignment explanation
Indices: 996810--996838 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
996800 TCATATATGC
996810 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
996839 TATTTTCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1005777 original size:18 final size:19
Alignment explanation
Indices: 1005754--1005797 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
1005744 TCAGTAATCC
*
1005754 TATTCC-CTAATAATCTTT
1 TATTCCACTAATAATCTTA
*
1005772 TATTCCCACTGATAATCTTA
1 TATT-CCACTAATAATCTTA
1005792 TATTCC
1 TATTCC
1005798 GTGAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.45
Consensus pattern (19 bp):
TATTCCACTAATAATCTTA
Found at i:1007866 original size:17 final size:17
Alignment explanation
Indices: 1007823--1007874 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1007813 AGTATAGCAG
*
1007823 AAACTCTTTAAATTAAT
1 AAACTCTATAAATTAAT
*
1007840 --ACTCGATAAATTAAT
1 AAACTCTATAAATTAAT
* *
1007855 AAACTCTCTAAAATAAT
1 AAACTCTATAAATTAAT
1007872 AAA
1 AAA
1007875 TTTGTTCGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
AAACTCTATAAATTAAT
Found at i:1013624 original size:185 final size:185
Alignment explanation
Indices: 1013249--1013638 Score: 631
Period size: 185 Copynumber: 2.1 Consensus size: 185
1013239 ATAAAATTTT
* * *
1013249 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACTATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
1013314 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAATTTTT
66 TTAAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
* *
1013379 TATTTTATAATTATATATTATTTAAATTAATTATATATTGTTTTTCTGAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTCTGAATTAAA
1013434 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* * *
1013499 TTAAATATCCAATAATTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAAATTT
66 TTAAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAA-ATTATATAAAATTT
* *
1013564 TTATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTT-TTAATTATA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTCTGAATTAAA
* *
1013619 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1013639 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
184 8 0.04
185 126 0.66
186 56 0.29
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTAAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAAATGTTTTTCTGAATTAAA
Found at i:1013639 original size:39 final size:41
Alignment explanation
Indices: 1013547--1013640 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 41
1013537 ATTAATTAAA
* * *
1013547 AATTTTATATAAAATTTTTATTTTATAATTATATATTATTT
1 AATTTTATATAAAATTGTTATTTTATAATTATAAAATATTT
* *
1013588 AAATTAATTATAAAA-TGTT-TTTT-TAATTATAAAATATTT
1 AATTTTA-TATAAAATTGTTATTTTATAATTATAAAATATTT
1013627 AATTTTTATATAAA
1 AA-TTTTATATAAA
1013641 TTAGAAAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
39 22 0.50
40 7 0.16
41 8 0.18
42 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (41 bp):
AATTTTATATAAAATTGTTATTTTATAATTATAAAATATTT
Found at i:1016684 original size:19 final size:19
Alignment explanation
Indices: 1016660--1016698 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1016650 CTATTATTTC
1016660 AAAA-TTATTATATATAAAA
1 AAAATTTATT-TATATAAAA
*
1016679 AAAATTTATTTATTTAAAA
1 AAAATTTATTTATATAAAA
1016698 A
1 A
1016699 TATCCGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTTATTTATATAAAA
Found at i:1016968 original size:20 final size:21
Alignment explanation
Indices: 1016945--1016991 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
1016935 AAATTATTTA
1016945 AATATATAA-ACAATTAAAAC
1 AATATATAATACAATTAAAAC
* *
1016965 AATA-AAAATACAATTAGAAC
1 AATATATAATACAATTAAAAC
1016985 AATATAT
1 AATATAT
1016992 TTAAAAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.14
20 18 0.82
21 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (21 bp):
AATATATAATACAATTAAAAC
Found at i:1017879 original size:15 final size:15
Alignment explanation
Indices: 1017859--1017887 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1017849 TTTGTTGTTT
1017859 TTTTTTTTTTCTCTG
1 TTTTTTTTTTCTCTG
1017874 TTTTTTTTTTCTCT
1 TTTTTTTTTTCTCT
1017888 TCGGTTCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTCTCTG
Found at i:1018394 original size:3 final size:3
Alignment explanation
Indices: 1018386--1018474 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
1018376 TTAATATATT
* * *
1018386 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA TAA TAT TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1018433 TAA TAA TAA AAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1018475 AATGGATAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1019110 original size:114 final size:114
Alignment explanation
Indices: 1018720--1019499 Score: 1275
Period size: 114 Copynumber: 6.9 Consensus size: 114
1018710 GCTCTTGATG
*
1018720 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CT
* * * *
1018784 CTGGTAATGTTGATCCATCAA-CTGATGAATTCAAGCAAAAGGTTGAACA
65 CTGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
* *
1018833 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
1018898 TGGAAAA-ATGATCCATCAA-GTGATGAATTTAAACAAAAGGTTGAACA
66 TGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
1018945 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
1019010 TGGAAAAGATGATCCACCAATTTGATGGATTCAGGTAAAAGGTTGAACA
66 TGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
*
1019059 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
1019124 TGGAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
1019173 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
1019238 TGGAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
*
1019287 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
1019352 TGGAAAAGAATGATCCATCAA-GTGATGAATTTAAACAAAAGGTCGAACA
66 TGGAAAAG-ATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
* *
1019401 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1019466 TGGAAACA-ATGATCCATCAATTTGATGAATTCAA
66 TGGAAA-AGATGATCCATCAATTTGATGAATTCAA
1019500 ATCTTTGCTA
Statistics
Matches: 627, Mismatches: 34, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
112 107 0.17
113 88 0.14
114 419 0.67
115 13 0.02
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (114 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
Found at i:1020178 original size:52 final size:52
Alignment explanation
Indices: 1020129--1020584 Score: 767
Period size: 52 Copynumber: 8.8 Consensus size: 52
1020119 CTATCCAATT
* *
1020129 AGATCAGATATCTCAAAGAACACTTCCAGAAAATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
*
1020181 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACC
* * *
1020233 AGATCAGATAACTCAAAGAATACTTCTAGAAGATGCTATGTTATGAT-CAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACC
1020285 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
*
1020337 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACC
*
1020389 AGATCAGATAACTCAAAGAACGCTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
*
1020441 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACC
1020493 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
1020545 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG
1020585 AGCACATTCA
Statistics
Matches: 384, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
51 3 0.01
52 378 0.98
53 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (52 bp):
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACC
Found at i:1021769 original size:23 final size:22
Alignment explanation
Indices: 1021743--1021804 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
1021733 CCTCCTTTTT
1021743 TTTTTTTTCCTTTTCTATATTTA
1 TTTTTTTT-CTTTTCTATATTTA
* * * *
1021766 TTTTATTTTTTTTTCTTTCTTTC
1 TTTT-TTTTCTTTTCTATATTTA
1021789 TTTTTCTTTCTTTTCT
1 TTTTT-TTTCTTTTCT
1021805 TCAAGCATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 1 0.03
23 27 0.84
24 4 0.12
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTTTCTTTTCTATATTTA
Found at i:1021794 original size:14 final size:14
Alignment explanation
Indices: 1021775--1021801 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1021765 ATTTTATTTT
1021775 TTTTTCTTTCTTTC
1 TTTTTCTTTCTTTC
1021789 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
1021802 TCTTCAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:1033757 original size:15 final size:15
Alignment explanation
Indices: 1033737--1033765 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1033727 TAGTTTGTTG
1033737 TTTTTTTTTCTCTTT
1 TTTTTTTTTCTCTTT
1033752 TTTTTTTTTCTCTT
1 TTTTTTTTTCTCTT
1033766 CGGTTCTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTCTCTTT
Found at i:1034263 original size:3 final size:3
Alignment explanation
Indices: 1034255--1034351 Score: 124
Period size: 3 Copynumber: 32.0 Consensus size: 3
1034245 TTAATATATT
* *
1034255 TAA TAA TAAA TAA TAA TAA T-A TAA TAA TAAA TAA TAT TAA TAA TGA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
1034301 TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1034349 TAA
1 TAA
1034352 AATGGATAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.02
3 73 0.90
4 6 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1034360 original size:21 final size:21
Alignment explanation
Indices: 1034255--1034351 Score: 142
Period size: 21 Copynumber: 4.6 Consensus size: 21
1034245 TTAATATATT
*
1034255 TAATAATAAATAATAATAAT-A
1 TAATAAT-AATAATATTAATAA
1034276 TAATAATAAATAATATTAATAA
1 TAATAAT-AATAATATTAATAA
*
1034298 TGATAATAATAATATTAATAA
1 TAATAATAATAATATTAATAA
*
1034319 TGATAATAATAATATTAATAA
1 TAATAATAATAATATTAATAA
1034340 TAATAATAATAA
1 TAATAATAATAA
1034352 AATGGATAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
21 65 0.90
22 7 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATAATAATAATATTAATAA
Found at i:1036176 original size:18 final size:20
Alignment explanation
Indices: 1036144--1036192 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
1036134 TAAATTGTGT
1036144 ATCGATGCA-TGGTAG-TGC
1 ATCGATGCACTGGTAGATGC
1036162 ATCGATGCACT-GTAGAATGC
1 ATCGATGCACTGGTAG-ATGC
*
1036182 ACCGATGCACT
1 ATCGATGCACT
1036193 TCAATGGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 1 0.04
20 13 0.48
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (20 bp):
ATCGATGCACTGGTAGATGC
Found at i:1038135 original size:15 final size:16
Alignment explanation
Indices: 1038115--1038155 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1038105 GTTTACTTCA
*
1038115 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
1038130 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
1038146 GAATGATTCA
1 GAATGATTCA
1038156 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:1045486 original size:21 final size:20
Alignment explanation
Indices: 1045441--1045491 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
1045431 GAAGTGTAAA
*
1045441 TATAATTTA-AATCTATATT
1 TATAATTTACAATCTATATC
* *
1045460 TTTAATTTACAATGTAATATC
1 TATAATTTACAATCT-ATATC
*
1045481 TATAATATACA
1 TATAATTTACA
1045492 TTTATTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATTTACAATCTATATC
Found at i:1046803 original size:60 final size:61
Alignment explanation
Indices: 1046734--1046862 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 61
1046724 TAGGGATCAT
* * * * * * *
1046734 TTTAGAATAAAAATCATAGTTT-TGAGATGAAACTGAAATATTTAAAAGTTT-GAAAACTAA
1 TTTAAAATAAAAACCATAATTTAAGAGATGAAACCGAAACATTTAAAAATTTAG-AAACTAA
* * *
1046794 TTTAAAATAATAACCATAATTTAAGGGATGAAACCGAAACATTTAAAAATTTAGGAACTAA
1 TTTAAAATAAAAACCATAATTTAAGAGATGAAACCGAAACATTTAAAAATTTAGAAACTAA
1046855 TTTAAAAT
1 TTTAAAAT
1046863 GAAGGTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
60 18 0.32
61 38 0.67
62 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.32
Consensus pattern (61 bp):
TTTAAAATAAAAACCATAATTTAAGAGATGAAACCGAAACATTTAAAAATTTAGAAACTAA
Found at i:1054620 original size:186 final size:185
Alignment explanation
Indices: 1054277--1054667 Score: 624
Period size: 186 Copynumber: 2.1 Consensus size: 185
1054267 TTTTCTAATT
* * * *
1054277 TATATAA-AAATTAAATATTTTTTAATTAAAAAAACAATTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAACAATATACAATTAATTTAAATAATATATAA
1054341 TTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
* * * *
1054406 TTGATTTTAAATTATTAATTGGGTTTTAAATAGTTTGGGTTGAG-TCCATAAGTTA
131 TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGAGTTGAGCT-CATAAGTTA
1054461 TATATAATATATTTAATATTTTTTAATTCAAAAAAACAATATACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTTTAATT-AAAAAAACAATATACAATTAATTTAAATAATATATA
* * *
1054526 ATTATAAAATAAAAATTTTATATACATTTTTTAATTAATTAATATTGGTTTAGGTTTAAAAGTTA
65 ATTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* * *
1054591 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGAGTTGAGCTTATATGTTA
130 TTGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGAGTTGAGCTCATAAGTTA
1054647 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
1054668 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 7 0.04
185 18 0.09
186 164 0.86
187 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAACAATATACAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTTATATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
TGGATCTTAAATTATTAATTGAGTTTTAAATAGTTTGAGTTGAGCTCATAAGTTA
Found at i:1061294 original size:3 final size:3
Alignment explanation
Indices: 1061286--1061327 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1061276 GAATTTTTCA
1061286 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1061328 TTGAATGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1061915 original size:30 final size:32
Alignment explanation
Indices: 1061879--1061947 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
1061869 AAAATTATTT
*
1061879 AAATAAATC-AAA-GAAAAAACAAAAGGAAAA
1 AAATAAATCAAAAGGAAAAAACAAAAGAAAAA
** *
1061909 AAATAAATCAAAAGGAAAAATTAAAATAAAAA
1 AAATAAATCAAAAGGAAAAAACAAAAGAAAAA
1061941 AAATAAA
1 AAATAAA
1061948 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 9 0.27
31 3 0.09
32 21 0.64
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.12
Consensus pattern (32 bp):
AAATAAATCAAAAGGAAAAAACAAAAGAAAAA
Found at i:1061935 original size:19 final size:18
Alignment explanation
Indices: 1061892--1061967 Score: 61
Period size: 18 Copynumber: 4.2 Consensus size: 18
1061882 TAAATCAAAG
1061892 AAAAAA-CAAAAGGAAAA
1 AAAAAATCAAAAGGAAAA
1061909 AAATAAATCAAAAGGAAAA
1 AAA-AAATCAAAAGGAAAA
* *
1061928 ATTAAAAT-AAAA-AAAATA
1 A-AAAAATCAAAAGGAAA-A
*
1061946 AAAAAAT-AAAATGAAATA
1 AAAAAATCAAAAGGAAA-A
1061964 AAAA
1 AAAA
1061968 TATATTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
17 15 0.30
18 18 0.36
19 16 0.32
20 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAATCAAAAGGAAAA
Found at i:1061953 original size:17 final size:18
Alignment explanation
Indices: 1061931--1061967 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1061921 AGGAAAAATT
1061931 AAAATAAAA-AAAATAAA
1 AAAATAAAATAAAATAAA
*
1061948 AAAATAAAATGAAATAAA
1 AAAATAAAATAAAATAAA
1061966 AA
1 AA
1061968 TATATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:1063467 original size:29 final size:30
Alignment explanation
Indices: 1063435--1063497 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
1063425 TAATAATAAA
*
1063435 AAATTAGAAAG-AAAAAGAAAGA-AAAAAAT
1 AAATTA-AAAGTAAAAAGAAACACAAAAAAT
*
1063464 AAATTAAAAGTAAAAATAAACACTAAAAAAT
1 AAATTAAAAGTAAAAAGAAACAC-AAAAAAT
1063495 AAA
1 AAA
1063498 AAAAATCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 15 0.52
31 10 0.34
ACGTcount: A:0.75, C:0.03, G:0.08, T:0.14
Consensus pattern (30 bp):
AAATTAAAAGTAAAAAGAAACACAAAAAAT
Done.